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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
517
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
517
DNA binding
193
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
316
transcription factor
108
control
90
histone modification
89
histone
80
recombinant protein
53
narrow histone mark
52
RNA binding protein
36
broad histone mark
11
chromatin remodeller
2
other context
2
other post-translational modification
Date released
287
November, 2017
194
May, 2020
63
December, 2017
53
August, 2017
47
November, 2018
40
May, 2022
35
August, 2021
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
646
bam
588
bigWig
430
fastq
409
bed narrowPeak
326
bigBed narrowPeak
174
tsv
75
tagAlign
50
bed broadPeak
50
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
756
Homo sapiens
Biosample type
367
cell line
360
tissue
15
in vitro differentiated cells
14
primary cell
Organ
883
pancreas
756
liver
661
connective tissue
498
epithelium
479
adipose tissue
354
kidney
353
heart
282
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
96
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
33
embryo
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
756
AMP
Genome assembly (visualization)
591
hg19
507
GRCh38
Lab
685
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
missing controlled_by
Audit category:
inconsistent control read length
2
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
audit.WARNING.category!
inconsistent control read length
BIOSAMPLE
ASSAY
756 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
344
14
1
1
2
2
2
1
tissue
liver
144
167
20
2
3
1
1
1
1
1
right lobe of liver
10
3
1
2
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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